genome.fa.s9625.2.7.7.80.10.50.1000.11.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  11  of  25  ( 2922 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3502523--3502561	19	2.1	19	95	0	69	30	41	10	17	1.83
3502767--3502810	12	3.7	12	90	0	70	11	20	45	22	1.83
3502767--3502822	24	2.3	24	90	3	85	14	19	44	21	1.86
3502776--3502822	12	3.8	12	88	2	67	12	19	48	19	1.80
3504227--3504275	21	2.3	21	89	0	71	28	2	16	53	1.54
3504220--3504366	27	5.8	27	81	11	168	27	2	17	53	1.55
3516932--3516970	19	2.0	20	85	5	53	33	7	17	41	1.79
3521307--3521380	5	14.6	5	72	18	55	21	5	1	71	1.13
3521308--3521386	25	3.2	26	78	16	78	18	5	2	73	1.13
3523032--3523077	22	2.1	22	91	0	74	36	2	10	50	1.50
3523528--3523559	16	2.1	15	94	5	55	50	0	18	31	1.48
3524976--3525017	22	1.9	22	90	0	66	35	4	11	47	1.61
3527201--3527336	60	2.3	60	75	11	138	28	28	24	18	1.98
3527307--3527380	22	3.4	22	100	0	148	28	18	31	21	1.97
3527437--3527504	35	1.9	35	82	5	84	36	20	14	27	1.92
3528550--3528613	27	2.4	27	86	0	83	23	15	10	50	1.76
3533561--3533615	20	2.8	20	83	5	67	32	20	16	30	1.94
3537742--3537792	27	1.9	26	92	4	84	29	15	23	31	1.95
3553046--3553083	15	2.4	15	91	8	58	81	2	15	0	0.80
3554099--3554185	32	2.7	32	80	0	93	31	12	20	35	1.90
3554418--3554574	64	2.5	64	85	7	196	35	22	12	29	1.91
3554771--3554894	43	2.9	43	81	4	144	30	27	18	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3555105--3555215	43	2.6	43	80	0	123	27	33	18	19	1.96
3554705--3555486	334	2.3	335	86	3	1097	32	24	18	24	1.97
3555376--3555595	117	1.9	118	92	2	372	34	21	15	28	1.94
3555541--3555657	32	3.6	32	72	15	105	35	26	17	20	1.94
3555509--3555624	34	3.5	34	70	17	98	39	23	15	21	1.91
3555503--3555660	66	2.4	66	90	0	235	36	24	16	22	1.94
3555727--3556275	84	6.6	84	80	4	524	33	22	17	26	1.96
3556293--3556689	84	4.7	84	81	3	388	32	22	18	26	1.97
3559380--3559411	10	3.2	10	100	0	64	50	21	9	18	1.75
3560358--3560384	12	2.2	12	100	0	54	48	0	7	44	1.31
3560447--3560471	6	4.2	6	100	0	50	52	32	0	16	1.44
3560670--3560712	19	2.2	20	88	8	63	53	2	0	44	1.13
3560856--3560890	18	2.1	16	89	10	52	62	0	0	37	0.95
3565385--3565415	14	2.2	14	100	0	62	51	6	12	29	1.65
3566501--3566544	14	3.3	14	84	6	56	47	0	0	52	1.00
3566498--3566556	23	2.6	23	94	0	100	50	0	0	49	1.00
3566497--3566577	33	2.5	32	82	5	92	51	0	0	48	1.00
3567757--3568128	110	3.4	110	85	6	490	26	19	11	42	1.85
3568341--3568534	57	3.4	58	87	2	268	35	20	10	34	1.86
3568707--3568762	14	4.3	14	78	17	75	5	14	28	51	1.64
3568708--3568769	24	2.6	24	94	0	106	6	12	27	53	1.63
3569165--3569233	10	8.1	10	66	33	54	7	11	23	57	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3569165--3569229	16	4.1	16	100	0	130	6	12	24	56	1.58
3569294--3569616	58	5.6	58	91	0	493	35	20	10	33	1.86
3574058--3574430	110	3.4	110	84	0	496	27	20	10	42	1.84
3574645--3574975	58	5.8	58	86	6	435	33	19	12	34	1.89
3583502--3583536	8	4.4	8	86	13	54	85	0	2	11	0.69
3583496--3583532	17	2.2	17	90	0	56	86	0	5	8	0.70
3588264--3588705	44	10.0	44	85	1	555	41	10	21	26	1.85
3595411--3595793	44	8.7	44	86	0	478	41	10	20	26	1.86
3604710--3604745	18	1.9	18	88	5	54	13	13	2	69	1.30
3604712--3604778	28	2.2	31	87	10	95	8	16	4	70	1.30
3607648--3608056	81	5.1	80	85	4	511	36	10	21	31	1.88
3621956--3622305	175	2.0	175	100	0	700	33	12	20	34	1.89
3638912--3640085	136	8.6	136	84	1	1445	26	22	16	34	1.95
3638912--3640075	273	4.3	272	85	1	1461	26	22	16	34	1.95
3646635--3646692	21	2.8	21	94	0	98	25	36	22	15	1.94
3648626--3648655	15	1.9	16	93	6	53	20	0	30	50	1.49
3652908--3652970	8	8.4	8	80	15	55	0	15	0	84	0.63
3652912--3652990	9	8.3	9	77	14	79	1	13	1	83	0.77
3652903--3652987	26	3.1	28	79	16	83	1	14	1	83	0.77
3652903--3652987	25	3.1	29	83	13	101	1	14	1	83	0.77
3652903--3652988	9	9.9	8	79	15	75	1	13	1	83	0.76
3652920--3652995	21	4.1	20	79	14	67	2	13	2	81	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3652915--3652989	1	75.0	1	72	0	51	1	12	1	85	0.73
3652924--3653006	38	2.3	37	83	6	98	3	14	2	79	0.97
3654358--3654394	13	2.6	15	79	16	51	45	8	29	16	1.76
3661392--3661496	40	2.7	40	90	1	167	42	9	11	36	1.74
3661547--3661573	14	1.9	14	100	0	54	14	11	14	59	1.62
3661833--3661885	23	2.3	23	90	3	81	13	7	16	62	1.53
3661896--3661926	10	3.1	10	90	0	53	9	12	19	58	1.62
3662001--3662033	16	2.1	16	100	0	66	6	12	24	57	1.57
3665268--3665319	27	2.0	26	88	11	79	32	1	15	50	1.55
3666963--3667122	44	3.6	44	91	0	248	29	20	8	42	1.80
3667227--3667425	40	5.0	40	96	0	362	33	26	17	23	1.96
3691640--3691682	17	2.5	17	92	0	68	39	9	16	34	1.80
3696556--3696609	21	2.7	21	77	11	60	22	1	7	68	1.24
3696648--3696693	16	2.9	16	76	0	56	26	8	6	58	1.52
3700463--3700520	20	2.9	20	84	0	80	27	20	6	44	1.77
3701096--3701140	22	2.0	24	87	12	69	46	6	0	46	1.29
3704474--3704512	2	19.5	2	89	0	60	43	0	5	51	1.24
3707140--3707173	13	2.6	13	80	0	50	26	2	0	70	1.01
3707861--3707887	12	2.2	12	100	0	54	44	0	22	33	1.53
3709848--3709894	21	2.2	21	96	0	85	14	25	27	31	1.95
3723071--3723460	186	2.1	184	92	3	642	44	8	3	42	1.53
3733447--3733674	114	2.0	114	100	0	456	17	26	18	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3737923--3737960	19	2.1	18	85	14	51	60	0	13	26	1.33
3744299--3744336	19	2.1	18	85	14	51	60	0	13	26	1.33
3744936--3744993	28	2.0	31	86	10	86	68	3	13	13	1.33
3749792--3749833	22	2.1	19	86	13	57	21	11	7	59	1.56
3752301--3752341	3	13.7	3	84	0	55	58	0	4	36	1.20
3752860--3753196	123	2.7	123	91	0	548	38	16	19	24	1.92
3756893--3756939	23	2.0	24	83	4	60	70	6	0	23	1.10
3768040--3768085	4	11.5	4	81	9	58	26	2	0	71	0.97
3768050--3768086	20	1.9	20	94	5	67	27	2	0	70	1.01
3777793--3777836	15	2.9	15	79	3	52	27	9	4	59	1.48
3779090--3779166	37	2.1	37	95	0	136	48	1	3	46	1.28
3779106--3779164	16	3.4	16	72	20	55	45	0	3	50	1.18
3779329--3779372	23	2.0	22	81	4	52	40	6	0	52	1.28
3785450--3785624	91	1.9	92	92	1	298	23	20	15	40	1.90
3785212--3785866	333	2.0	331	89	2	1001	24	20	17	37	1.93
3786229--3786326	37	2.7	36	73	9	99	44	14	18	22	1.85
3786351--3786432	35	2.3	35	77	8	85	36	12	15	35	1.85
3786388--3786522	40	3.4	40	76	4	123	34	11	20	34	1.88
3786496--3787108	40	15.4	40	93	1	971	40	13	17	29	1.87
3787021--3787084	20	3.2	20	62	16	51	42	10	15	31	1.82
3788197--3788290	41	2.3	42	80	9	113	29	22	13	34	1.93
3792009--3792099	14	6.6	13	68	17	51	56	13	15	15	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3797404--3797456	21	2.5	21	93	0	88	28	28	22	20	1.99
3797535--3797589	21	2.6	21	91	0	83	20	20	27	32	1.97
3798136--3798166	6	5.2	6	96	0	53	3	16	45	35	1.63
3798252--3798498	42	5.9	42	95	0	440	35	23	20	21	1.96
3800127--3800165	8	4.8	8	84	6	51	82	0	17	0	0.68
3800127--3800174	15	3.0	16	90	6	71	83	0	16	0	0.65
3800128--3800174	9	5.3	9	85	10	53	85	0	14	0	0.61
3801408--3802867	486	3.0	486	96	0	2697	32	12	21	34	1.90
3813071--3813129	20	2.9	19	90	9	91	22	25	15	37	1.93
3813810--3813848	19	2.0	20	90	5	62	43	17	20	17	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25